Research School of Biological Sciences
ANU COLLEGE OF SCIENCE
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Research School of Biological Sciences
ANU COLLEGE OF SCIENCE
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Dr Jiayu Wen
ContactBioinformatics Laboratory Research School of Biological Science, Australian National University and ARC Centre of Excellence for Integrative Legume Research (CILR) Canberra, ACT 0200, Australia
Work Phone: 61-2-61252490
Current ResearchMy current research are devoted to the further understanding of ncRNA characteristics supported by robust statistical and computational methods, and machine learning/statistical inference in Bioinformatics.My current projects include: (1) Distributional tests on RNA structural stand asymmetries for ncRNA classifications using machine learning approaches. The goal of this study is to explore a rigorous statistical description of the discriminative sequence features involving RNA structural stand asymmetries, and construct a ncRNA classifier using machine learning approaches, such as Support Vector Machines, and subsequent widening of the analysis to other publicly available datasets in addition to the legume data. (2) Stratification bias in heterogeneous, small low signal datasets. When estimating classifer performance on the heterogeneous (i.e. a mixture of subtypes), small low-signal datasets common in biomedical datasets such as microarray or expressed sequence tag (EST) datasets, we found that common sample-reuse validation schemes such as repeated holdout or cross-validation can lead to very high variance and inaccurate, pessimistic estimates. This effect is due to inadequate stratification when sampling from the (unidentified) subclasses of heterogenous datasets. We demonstrate a new form of sample-resuse scheme that correctly stratifies for these subclasses, leading to dramatically lower variances in error rate and AUC estimates on such datasets. Academic QualificationsPhD in Bioinformatics, Australian National University, Australia,2007M.Sc. in Computer Science, Lakehead University, Canada, 2003 B.Eng in Electronic Engineering, Beijing Union University and Tsinghua University, China, 1997 Relevant Employment History2007-present, Postdoctoral Fellow, Australian National University, Australia2003-2007, PhD scholar, Australian National University, Australia 2003, Research Assistant, Lakehead University, Canada 2000-2002, Teaching Assistant, Lakehead University, Canada PublicationsWen, J., Parker, B. J. and Weiller, G. F. (2007). In silico identification and characterization of mRNA-like noncoding transcripts in Medicago truncatula.Accepted. Steele, E. J., Lindley, R. A., Wen, J., and Weiller, G. F. (2006). Computational analyses show A-to-G mutations correlate with nascent mRNA hairpins at somatic hypermutation hotspots. DNA Repair, 5(11):1346-63 Wen, J., Parker, B. J., and Weiller, G. F. (2007). Statistical evidence for structural strand asymmetry in non-coding RNAs. Submitted. Parker, B. J., and Wen, J. (2007). Stratification bias in heterogeneous, small low signal datasets. Submitted. |
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